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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtagatttaacttaaatttgtcacgtatgctagtacatactacaatgaaaatccttgattccattgcattggttaaatgggcttattccttgcagTTGTGTGCAAATACGGAACTGGTTTGACTATCGTAATCATATCTGTATT

Basic information

species Glycine max
transcript GLYMA05G02740.3
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA05G02740.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os12g27520.4 (Oryza sativa), 3'ss of exon 4
gtaagt---agatttaacttaaatttgtcacgtatgctagtacatactacaatgaaaatccttgattccattgcattggtt----aaatgggcttatt--ccttgcagTTGTGTGCAAATACGGAACTGGTTTGACTATCGTAATCATATCTGTATT
|| |||   |   || ||||     | || | || |  | |   |  |  |        | ||  || |     |||| ||    | ||  |||  |     |||||||||||| ||||| ||||||||||||||||||||||| ||||||||||||
gtgagtcctatggttcacttttccgtttcccttaagtaactgt-tgatctatctgtgtgctttacttgcgcaatattgcttgtatatataagctggtctattttgcagTTGTGTTCAAATTCGGAACTGGTTTGACTATCGTAACCATATCTGTATT

upper sequence: GLYMA05G02740.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G179308_T03 (Zea mays), 3'ss of exon 4
gtaagtagatttaacttaaatttgtcacgtatgctagtacatactacaatgaaaatccttgattccattgcattggttaaatgggcttatt--ccttgcagTTGTGTGCAAATACGGAACTGGTTTGACTATCGTAATCATATCTGTATT
                | | ||||     |  | ||  ||        |||     | || ||   ||||| |||  || ||  |||  |     |||||||||||| ||||| ||||||||||||||||||||||| ||||||||||||
---------------gtgagtttgctggttcggttaacacccttctgtatgctttacattcataagattgc-ttgtatatataagctggtctattttgcagTTGTGTTCAAATTCGGAACTGGTTTGACTATCGTAACCATATCTGTATT

upper sequence: GLYMA05G02740.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G063792_T04 (Zea mays), 3'ss of exon 4
gtaagtagatttaacttaaatttgtcacgtatgctagtacatactacaatgaaaatccttgattccattgcat-tggttaaatgggcttattccttgcagTTGTGTGCAAATACGGAACTGGTTTGACTATCGTAATCATATCTGTATT
                | | ||||     |  | ||| || ||      ||   | | || ||   ||||| | |   |||   ||  ||||  |||||||||||| ||||| ||||||||||||||||||||||| ||||||||||||
---------------gtgagtttgctggttcagttagcacctatatgcgtgctta-cgttcataagattgcttgtatataagctggtctatt--ttgcagTTGTGTTCAAATTCGGAACTGGTTTGACTATCGTAACCATATCTGTATT

upper sequence: GLYMA05G02740.1 (Glycine max), 3'ss of exon 3
lower sequence: AT4G24740.2 (Arabidopsis thaliana), 3'ss of exon 3
---------gtaagtagatttaacttaaatttgtcacgtatgctagtacatactacaatgaaaatccttgattccatt--gcattggttaaatgggcttattccttgcagTTGTGTGCAAATACGGAACTGGTTTGACTATCGTAATCATATCTGTATT
         ||  || || ||    |  ||   ||||  || ||  |  |  | |  ||     |||  |||||  ||  |||  ||||||||     |||||||||||||||||| ||||| ||||||||||||||||||||||| ||||||||||||
gtaagtactgtctgttgactttttcttcatgcatcactaat-ctgatgaagtcaagcatagttttccaagattcttttttgcaaaggttaaatcattgtattccttgcagTTGTGTACAAATTCGGAACTGGTTTGACTATCGTAACCATATCTGTATT

upper sequence: GLYMA05G02740.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv17s0000g09500.t01 (Vitis vinifera), 3'ss of exon 4
gtaagtagat-ttaac----ttaaatttgtcacgtatgctagtacatactacaatgaaaatccttgattccattg-cattggttaaatgggcttattccttgcagTTGTGTGCAAATACGGAACTGGTTTGACTATCGTAATCATATCTGTATT
|| |||   |  ||      |||| |   | || |      ||    |||   || |   |   | |     ||| || |||||||||| | |||||| |||||||||||||||||||||||||||||||||||||||||| ||||||||||||
gtgagtgtttactagtgttgttaactccttaacctgccactgttggcactcttataagcttttctaagcattttgtcaatggttaaatgagtttattctttgcagTTGTGTGCAAATACGGAACTGGTTTGACTATCGTAACCATATCTGTATT

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|151394814|gb|EV264685.1|EV264685
EST:     GAAATTGAGGTGTTGCAACAGCTTGGTAAACATGATAAAGGAGGCAATCG                         TTGTGTGCAAATACGGAACTGGTTTGACTATCGTAATCATATCTGTATT
genomic: GAAATTGAGGTGTTGCAACAGCTTGGTAAACATGATAAAGGAGGCAATCGgtaagtagat ... ttccttgcagTTGTGTGCAAATACGGAACTGGTTTGACTATCGTAATCATATCTGTATT
EST: gi|193536287|gb|FK492719.1|FK492719
EST:     ATTGAGGTGTTGCAACAGCTTGGTAAACATGATAAAAGGAAGGACAATCG                         TTGTGTGCAAATACGGAACTGGTT
genomic: ATTGAGGTGTTGCAACAGCTTGGTAAACATGATAAA-GGA-GG-CAATCGgtaagtagat ... ttccttgcagTTGTGTGCAAATACGGAACTGGTT
EST: gi|21994008|gb|BQ785536.1|BQ785536
EST:     GAAATTGAGGTGTTGCAACAGCTTGGTAAACATGATAAAGGAGGCAATCG                         TTGTGTGCAAATACGGAACTGGTTTGACTATCGTAATCATATCTGTATT
genomic: GAAATTGAGGTGTTGCAACAGCTTGGTAAACATGATAAAGGAGGCAATCGgtaagtagat ... ttccttgcagTTGTGTGCAAATACGGAACTGGTTTGACTATCGTAATCATATCTGTATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tacaatgaaaatccttgattccattgcattggttaaatgggcttattccttgcagTTGTGTGCAAATACGGAACTGGTTTGACTATCGTAATCATATCTGTATT
            ccttgat  putative branch site (score: 5)
                                         cttattcctt  putative PPT
                                ttaaat  TA-rich tract